Introduction

Incorporating secondary structure information into the alignment process improves the quality of RNA sequence alignments. Instead of using fixed weighting parameters, sequence and structure components can be treated as different objectives and optimized simultaneously. The result is not a single, but a Pareto-set of equally optimal solutions, which all represent different possible weighting parameters. We now provide the interactive graphical software tool RNA-Pareto, which allows a direct inspection of all feasible results to the pairwise RNA sequence-structure alignment problem and greatly facilitates the exploration of the optimal solution set.

Publications

  1. RNA-Pareto: interactive analysis of Pareto-optimal RNA sequence-structure alignments.
    Cite this
    Schnattinger T, Schöning U, Marchfelder A, Kestler HA, 2013-12-01 - Bioinformatics (Oxford, England)

Credits

  1. Thomas Schnattinger
    Developer

    Institute of Theoretical Computer Science, Medical Systems Biology and Biology II, Germany

  2. Uwe Schöning
    Developer

  3. Anita Marchfelder
    Developer

  4. Hans A Kestler
    Investigator

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Summary
AccessionBT006177
Tool TypeApplication
Category
PlatformsLinux/Unix
TechnologiesC++
User InterfaceTerminal Command Line
Download Count0
Submitted ByHans A Kestler